Results 111 to 120 of about 2,682 (195)

Image_2_Updating the Phylodynamics of Yellow Fever Virus 2016–2019 Brazilian Outbreak With New 2018 and 2019 São Paulo Genomes.JPEG

, 2022
The recent outbreak of yellow fever (YF) in São Paulo during 2016–2019 has been one of the most severe in the last decades, spreading to areas with low vaccine coverage. The aim of this study was to assess the genetic diversity of the yellow fever virus (
Ana Paula Moreira Salles (6720122), Ana Catharina de Seixas Santos Nastri (12416281), Flair Jose Carrilho (12416290), Fernanda de Mello Malta (10946949), Yeh-Li Ho (6720131), Deyvid Emanuel Amgarten (10377614), João Renato Rebello Pinho (9662688), Luciana Vilas Boas Casadio (6720119), Santiago Justo Arévalo (12416284), Michele Soares Gomes-Gouvea (12416287)   +9 more
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Evolutionary Dynamics of the Lineage 2 West Nile Virus That Caused the Largest European Epidemic: Italy 2011–2018

Viruses, 2019
Lineage 2 West Nile virus (WNV) caused a vast epidemic in Europe in 2018, with the highest incidence being recorded in Italy. To reconstruct the evolutionary dynamics and epidemiological history of the virus in Italy, 53 envelope gene and 26 complete ...
Carla Veo, Carla della Ventura, Ana Moreno, Francesca Rovida, Elena Percivalle, Sabrina Canziani, Debora Torri, Mattia Calzolari, Fausto Baldanti, Massimo Galli, Gianguglielmo Zehender   +10 more
doaj   +1 more source

Phylodynamic Insights into Global Emergence and Diversification of the Tomato Pathogen Xanthomonas hortorum pv. gardneri

Molecular Plant-Microbe Interactions
The emergence of plant pathogens is often associated with waves of unique evolutionary and epidemiological events. Xanthomonas hortorum pv. gardneri is one of the major pathogens causing bacterial spot disease of tomatoes.
Mustafa O. Jibrin, Anuj Sharma, Carla N. Mavian, Sujan Timilsina, Amandeep Kaur, Fernanda Iruegas-Bocardo, Neha Potnis, Gerald V. Minsavage, Teresa A. Coutinho, Tom C. Creswell, Daniel S. Egel, David M. Francis, Misrak Kebede, Sally A. Miller, María J. Montelongo, Ekaterina Nikolaeva, María J. Pianzzola, Olivier Pruvost, Alice M. Quezado-Duval, Gail E. Ruhl, Vou M. Shutt, Elizabeth Maynard, Diego C. Maeso, María I. Siri, Cheryl L. Trueman, Marco Salemi, Gary E. Vallad, Pamela D. Roberts, Jeffrey B. Jones, Erica M. Goss   +29 more
doaj   +1 more source

Quantifying the epidemic spread of Ebola virus (EBOV) in Sierra Leone using phylodynamics

, 2014
International audienceMeasuring epidemic parameters early in an outbreak is essential to inform control efforts. Using the viral genome sequence and collection date from 74 infections in the 2014 Ebola virus outbreak in Sierra Leone, we estimate key ...
Alizon, Samuel, Murall, Carmen Lia, Lion, Sébastien, Abbate, Jessica Lee   +3 more
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Reconstructing the Dissemination Dynamics of the Major HIV-1 Subtype B Non-Pandemic Lineage Circulating in Brazil

Viruses, 2019
Non-pandemic variants of the Human Immunodeficiency Virus Type 1 (HIV-1) subtype B accounts for a significant fraction of HIV infections in several Caribbean islands, Northeastern South American countries and the Northern Brazilian states of Roraima and ...
Ighor Arantes, Myuki Alfaia Esashika Crispim, Mônica Nogueira da Guarda Reis, Mariane Martins Araújo Stefani, Gonzalo Bello   +4 more
doaj   +1 more source

South Asian origin and global transmission history of Mycobacterium tuberculosis lineage 4

mSystems
The origin and transmission history of Mycobacterium tuberculosis lineage 4 (MTB L4) has been extensively studied. However, different studies yielded different results; thus, the evolutionary history of MTB L4 still remains a subject of debate. Recently,
Bharkbhoom Jaemsai, Prasit Palittapongarnpim, Pakorn Aiewsakun   +2 more
doaj   +1 more source

High-Performance Computing in Bayesian Phylogenetics and Phylodynamics Using BEAGLE

, 2019
In this chapter, we focus on the computational challenges associated with statistical phylogenomics and how use of the broad-platform evolutionary analysis general likelihood evaluator (BEAGLE), a high-performance library for likelihood computation, can ...
Baele, Guy, Lemey, Philippe, Suchard, Marc A., Rambaut, Andrew, Ayres, Daniel L.   +4 more
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Phylodynamic Structure in the Botswana HIV Epidemic

Abstract Background Studying viral sequences can provide insights into the structure of host contact networks through which the virus is transmitted. Uncovering the population structure of the HIV-1 epidemic in Botswana will help optimise public health interventions and may identify hidden sub-epidemics. We sought to determine the phylodynamic
Kenanao Kotokwe, Fabrícia F. Nascimento, Sikhulile Moyo, Simani Gaseitsiwe, Molly Pretorius Holme, Joseph Makhema, Max Essex, Vlad Novitsky, Erik Volz, Manon Ragonnet-Cronin, PANGEA Consortium   +10 more
openaire   +2 more sources

Bayesian phylodynamic inference of population dynamics with dormancy

Proceedings of the National Academy of Sciences
ABSTRACT Many organisms employ reversible dormancy, or seedbank , in response to environmental fluctuations. This life-history strategy alters fundamental eco-evolutionary forces, leading to distinct patterns of genetic diversity.
Lorenzo Cappello, Wai Tung ‘Jack’ Lo, Joy Z. Zhang, Peiyu Xu, Daniel Barrow, Ishani Chopra, Andrew G. Clark, Martin T. Wells, Jaehee Kim   +8 more
openaire   +4 more sources

Bayesian Modeling of Viral Phylodynamics [PDF]

, 2015
Viral phylodynamics is the study of how immunodynamics, epidemiology, and evolutionary processes act and interact to shape viral phylogenies. We build upon the foundation of Bayesian phylogenetic inference to develop statistical tools to address ...
Gill, Mandev Singh
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